GREMLIN Database
TraE - TraE protein
PFAM: PF05309 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 182 (181)
Sequences: 1854 (1502)
Seq/√Len: 111.7
META: 0.798

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
90_D120_K4.9641.00
24_L27_L3.1321.00
16_E21_K2.9311.00
77_V99_Y2.9031.00
52_P76_Y2.7641.00
100_V108_L2.6741.00
128_F146_G2.6681.00
78_A144_V2.5931.00
31_N34_L2.5921.00
20_L24_L2.5331.00
28_L31_N2.4871.00
27_L31_N2.4521.00
89_V116_A2.3761.00
17_N20_L2.2581.00
49_L58_F2.2051.00
141_T165_E2.1901.00
143_E163_T2.1311.00
78_A166_L2.0231.00
54_I58_F2.0221.00
117_E121_K2.0201.00
136_D139_T1.9871.00
59_W66_S1.9761.00
167_E178_T1.8751.00
145_T163_T1.8251.00
141_T167_E1.7871.00
34_L38_L1.7741.00
84_V119_I1.7461.00
151_Y156_K1.7031.00
58_F72_Q1.6921.00
70_L140_L1.6511.00
89_V93_F1.6421.00
149_K159_S1.6421.00
46_R59_W1.6321.00
67_A137_P1.6301.00
97_L100_V1.6251.00
147_T159_S1.5971.00
167_E179_S1.5921.00
67_A71_E1.5291.00
143_E165_E1.5041.00
90_D116_A1.5031.00
79_S83_N1.4741.00
82_L148_L1.4421.00
78_A82_L1.4241.00
74_A142_V1.4101.00
101_D176_L1.4071.00
149_K156_K1.3991.00
145_T161_R1.3951.00
38_L41_A1.3951.00
89_V119_I1.3841.00
77_V166_L1.3721.00
93_F113_A1.3551.00
77_V177_L1.3471.00
156_K159_S1.3431.00
65_V170_Y1.3221.00
82_L180_F1.3171.00
131_Q161_R1.3151.00
101_D171_R1.3080.99
101_D169_R1.3070.99
46_R61_S1.3060.99
126_S148_L1.2910.99
82_L164_Y1.2880.99
129_Y149_K1.2850.99
61_S64_K1.2840.99
80_L96_L1.2610.99
131_Q147_T1.2190.99
17_N21_K1.2030.99
169_R178_T1.1950.99
101_D178_T1.1920.99
97_L109_K1.1680.99
10_L13_L1.1660.99
116_A120_K1.1660.99
69_Y73_M1.1660.99
90_D94_E1.1570.99
25_L29_L1.1450.99
147_T161_R1.1430.99
84_V89_V1.1410.99
119_I124_I1.1340.99
65_V140_L1.1260.98
58_F66_S1.1180.98
84_V126_S1.1120.98
130_P144_V1.1100.98
168_F175_L1.0940.98
5_I9_K1.0880.98
33_L37_L1.0740.98
127_V151_Y1.0710.98
87_E105_Y1.0630.98
118_R122_N1.0510.98
132_K145_T1.0480.98
93_F112_L1.0380.97
86_P125_S1.0340.97
3_L7_L1.0200.97
136_D141_T1.0190.97
110_A114_A1.0180.97
13_L16_E0.9710.96
126_S150_T0.9650.96
74_A78_A0.9590.96
134_E143_E0.9560.96
73_M175_L0.9550.96
30_A34_L0.9530.96
30_A35_A0.9460.95
77_V168_F0.9410.95
90_D113_A0.9260.95
111_Q115_E0.9250.95
74_A144_V0.9200.95
40_R43_K0.9190.95
70_L73_M0.9150.95
7_L10_L0.9060.94
73_M76_Y0.9040.94
166_L177_L0.9010.94
150_T157_V0.8960.94
152_V157_V0.8900.94
4_K7_L0.8730.93
28_L32_L0.8610.93
142_V168_F0.8540.92
148_L164_Y0.8470.92
8_S11_S0.8420.92
44_N62_G0.8400.92
11_S19_L0.8370.92
57_E66_S0.8350.91
20_L23_L0.8340.91
90_D108_L0.8210.91
75_R133_I0.8200.91
2_K5_I0.8130.90
70_L142_V0.8130.90
48_V59_W0.8120.90
83_N127_V0.8070.90
148_L162_K0.8010.90
124_I157_V0.7930.89
5_I8_S0.7920.89
9_K50_V0.7900.89
9_K12_N0.7890.89
14_R17_N0.7880.89
65_V83_N0.7870.89
74_A168_F0.7860.89
75_R92_Q0.7850.89
96_L100_V0.7840.89
73_M148_L0.7790.88
86_P105_Y0.7700.88
49_L148_L0.7680.88
89_V120_K0.7680.88
24_L28_L0.7670.88
24_L31_N0.7640.87
88_N92_Q0.7640.87
73_M82_L0.7630.87
78_A180_F0.7570.87
84_V93_F0.7550.87
7_L12_N0.7520.87
139_T153_G0.7520.87
82_L100_V0.7510.86
60_V69_Y0.7460.86
56_K72_Q0.7440.86
77_V96_L0.7410.86
94_E98_R0.7280.85
23_L26_L0.7200.84
11_S14_R0.7170.84
75_R175_L0.7120.83
75_R95_E0.7110.83
115_E126_S0.7110.83
104_A107_E0.7080.83
52_P55_S0.7030.83
133_I144_V0.7020.83
68_E71_E0.6990.82
120_K134_E0.6930.82
85_T105_Y0.6880.81
71_E95_E0.6880.81
168_F177_L0.6810.81
81_L111_Q0.6780.80
81_L96_L0.6780.80
97_L105_Y0.6740.80
2_K25_L0.6730.80
40_R44_N0.6700.80
49_L72_Q0.6690.79
31_N37_L0.6690.79
33_L36_L0.6690.79
81_L112_L0.6680.79
70_L135_V0.6670.79
22_L32_L0.6670.79
136_D143_E0.6630.79
26_L32_L0.6620.79
60_V65_V0.6620.79
124_I150_T0.6610.79
8_S29_L0.6590.78
114_A118_R0.6590.78
106_G110_A0.6570.78
155_K164_Y0.6560.78
51_P69_Y0.6510.78
21_K34_L0.6480.77
79_S92_Q0.6480.77
4_K8_S0.6470.77
15_A18_R0.6430.77
12_N15_A0.6420.77
45_E124_I0.6300.75
70_L168_F0.6260.75
80_L92_Q0.6220.74
49_L69_Y0.6210.74
18_R21_K0.6210.74
88_N102_P0.6210.74
83_N129_Y0.6200.74
22_L29_L0.6200.74
36_L42_S0.6190.74
144_V166_L0.6170.74
110_A117_E0.6150.73
38_L66_S0.6130.73
49_L76_Y0.6100.73
46_R62_G0.6080.73
107_E110_A0.6070.73
94_E97_L0.6050.72
95_E98_R0.6020.72
81_L166_L0.5990.72
25_L28_L0.5990.72
82_L146_G0.5980.71
50_V53_T0.5970.71
76_Y95_E0.5950.71
72_Q76_Y0.5910.71
115_E119_I0.5870.70
82_L128_F0.5870.70
148_L180_F0.5860.70
107_E111_Q0.5860.70
170_Y178_T0.5830.70
59_W71_E0.5830.70
94_E138_K0.5810.69
84_V88_N0.5800.69
57_E132_K0.5800.69
165_E179_S0.5760.69
50_V66_S0.5740.68
50_V72_Q0.5740.68
84_V124_I0.5730.68
21_K25_L0.5710.68
16_E19_L0.5710.68
35_A38_L0.5710.68
25_L36_L0.5680.68
10_L14_R0.5670.67
33_L111_Q0.5660.67
64_K94_E0.5640.67
45_E48_V0.5640.67
72_Q82_L0.5610.67
111_Q120_K0.5610.67
27_L30_A0.5590.66
84_V92_Q0.5580.66
44_N47_V0.5560.66
29_L36_L0.5510.65
58_F68_E0.5500.65
58_F76_Y0.5480.65
169_R172_N0.5480.65
96_L116_A0.5460.65
87_E97_L0.5460.65
3_L6_F0.5390.64
72_Q83_N0.5380.63
26_L30_A0.5370.63
67_A135_V0.5370.63
79_S127_V0.5350.63
7_L13_L0.5350.63
103_E171_R0.5340.63
170_Y175_L0.5310.62
175_L178_T0.5250.62
55_S138_K0.5250.62
88_N129_Y0.5250.62
23_L27_L0.5220.61
82_L126_S0.5200.61
71_E133_I0.5200.61
34_L42_S0.5190.61
2_K7_L0.5190.61
117_E120_K0.5160.60
52_P95_E0.5120.60
9_K14_R0.5110.59
124_I156_K0.5080.59
166_L180_F0.5060.59
7_L11_S0.5060.59
16_E22_L0.5050.59
54_I103_E0.5050.59
65_V144_V0.5040.58
70_L175_L0.5000.58
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3wz4A 3 0.6593 66.1 0.893 Contact Map
3ub1A 3 0.6099 60.6 0.896 Contact Map
5cnlA 3 0.6538 60.1 0.897 Contact Map
3wz3A 1 0.6374 42.4 0.907 Contact Map
2cc3A 2 0.6429 30.5 0.914 Contact Map
4akzA 1 0.6484 26.8 0.916 Contact Map
4lsoA 1 0.6429 24.4 0.918 Contact Map
4o3vA 2 0.6209 21.2 0.92 Contact Map
2bhmA 2 0.6319 12 0.929 Contact Map
4jf8A 2 0.6593 11.7 0.929 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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